HsaINT0095590 @ hg38
Intron Retention
Gene
ENSG00000115318 | LOXL3
Description
lysyl oxidase like 3 [Source:HGNC Symbol;Acc:HGNC:13869]
Coordinates
chr2:74534531-74535454:-
Coord C1 exon
chr2:74535292-74535454
Coord A exon
chr2:74534775-74535291
Coord C2 exon
chr2:74534531-74534774
Length
517 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
CCCTTCCTTTCTTGGTGCAGCTG
3' ss Score
9.89
Exon sequences
Seq C1 exon
GAGACCTGGTACTGGGACTCTGGGAATATAACAGAGGTGGTGATGAGTGGAGTGCGCTGCACAGGGACTGAGCTGTCCCTGGATCAGTGTGCCCATCATGGCACCCACATCACCTGCAAGAGGACAGGGACCCGCTTCACTGCTGGAGTCATCTGTTCTGAGA
Seq A exon
GTGAGTGAAGGAGGGGGTGATGCATGCCAGGGAAGGGAGTGTCTGGGCCACCCGTTTGCAGGGAAAGGGGGCTGTAATCTGGAGGGGCACTTCTTCCCCATAAAAGAGCCAGTTTCGCCGGGTGCAGTGGCTCACGCCTGTAATCCCAGCACTTTAGGAGGCCAAGGCGGATGGATCACGAGGTCAGGAATTCAAGACCAGCCTGACCAAGATGGTGAAACCCTGTCTCTACTAAAACTACAAAAATTAGCCAGGCGCAGTGGCAGGCGCCTATAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCCAGGTGGCAGAGGTTGCAGTGAGCCAAGATCACGCCGCTGCATTCCAGCCTCGGCAACAGAGTGAGACTCCATCTCAAACAAACAAACAAACAAAAACAAAAACAAAAAACTAGTCTTACACACTAGGGAGGGATGGAAGCACCCCTCTCTGTGAAGTCAGCAGTGACTTCTAACACCCCCTTCCTTTCTTGGTGCAG
Seq C2 exon
CTGCATCAGATCTGTTGCTGCACTCAGCACTGGTGCAGGAGACCGCCTACATCGAAGACCGGCCCCTGCATATGTTGTACTGTGCTGCGGAAGAGAACTGCCTGGCCAGCTCAGCCCGCTCAGCCAACTGGCCCTATGGTCACCGGCGTCTGCTCCGATTCTCCTCCCAGATCCACAACCTGGGACGAGCTGACTTCAGGCCCAAGGCTGGGCGCCACTCCTGGGTGTGGCACGAGTGCCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115318:ENST00000264094:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(49.1=94.5)
A:
NA
C2:
PF0118612=Lysyl_oxidase=PU(38.7=96.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTACTGGGACTCTGGGAA
R:
GAAGTCAGCTCGTCCCAGGTT
Band lengths:
355-872
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development